Gene omics information

Query gene ID At4g25350
Gene name SHB1 (SHORT HYPOCOTYL UNDER BLUE1)
Organism Arabidopsis thaliana


Co-expressed genes



As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
0.114.1At4g25350828638SHB1 (SHORT HYPOCOTYL UNDER BLUE1)SHB1 encodes a nuclear and cytosolic protein that has motifs homologous with SYG1 protein family members. Acts in cryptochrome signaling. Overexpression of SHB1 enhanced the expression of PHYTOCHROME-INTERACTING FACTOR4 (PIF4) under red light and promoted proteasome-mediated degradation of phytochrome A and hypocotyl elongation under far-red light. A knockout allele suppressed LONG HYPOCOTYL IN FAR-RED LIGHT1 (HFR1) expression and showed several deetiolation phenotypes. Acts upstream of HFR1. Regulates seed development.S.X.H.G.
0.5773.8At1g61460842440S-locus protein kinase, putativeF:in 6 functions;P:protein amino acid phosphorylation, recognition of pollen;C:unknown;MPOBFVAS.X.H.G.
0.5065.3At2g20350816554AP2 domain-containing transcription factor, putativeencodes a member of the ERF (ethylene response factor) subfamily B-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 12 members in this subfamily including RAP2.11.S.X.H.G.
0.3643.6At2g31690817725lipase class 3 family proteinencodes a triacylglycerol lipase located in plastoglobuli and involved in the degradation of triacylglycerol. It also has impact on leaf senescence and maintaining the structural integrity of thylakoids.S.X.H.G.
0.2930.3At4g28703828989-F:molecular_function unknown;P:unknown;C:cellular_component unknown;BOPS.X.H.G.
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Specifically expressed experiments



As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX%ileGSM IDAssay NameGSE IDExperiment Title
373.7100.0E-MEXP-807-raw-cel-1173273170
242.4100.0E-MEXP-807-raw-cel-1173273223
228.2100.0E-MEXP-807-raw-cel-1173272948
214.3100.0GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
178.4100.0E-MEXP-807-raw-cel-1173273252
141.599.9GSM142851MG001_ATH1_A4-Torres-2N1GSE6176Impact of Type III effectors on plant defense responses
133.399.9E-MEXP-807-raw-cel-1173273116
130.099.9GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular function
129.499.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
123.199.9E-MEXP-807-raw-cel-1173273060
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Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.402e-30135At1g35350840424-F:unknown;P:unknown;C:integral to membrane;FMPOBC.G.S.X.
0.476e-27123At1g26730839214EXS family protein / ERD1/XPR1/SYG1 family proteinF:unknown;P:unknown;C:integral to membrane, plasma membrane;FMPOBC.G.S.X.
0.102e-1791At2g03240814853-F:unknown;P:unknown;C:integral to membrane;MFPOC.G.S.X.
0.118e-1479At1g14040837965-F:unknown;P:unknown;C:integral to membrane;FMPOC.G.S.X.
0.023e-1067At3g29060822550-F:unknown;P:unknown;C:integral to membrane;MFPOVBAC.G.S.X.
0.071e-965At2g03250814854EXS family protein / ERD1/XPR1/SYG1 family proteinF:unknown;P:unknown;C:integral to membrane;MFPOBC.G.S.X.
0.115e-654At2g03260814855EXS family protein / ERD1/XPR1/SYG1 family proteinF:unknown;P:unknown;C:integral to membrane;FMPOC.G.S.X.
0.055e-344At1g69480843280EXS family protein / ERD1/XPR1/SYG1 family proteinF:molecular_function unknown;P:biological_process unknown;C:integral to membrane, plasma membrane;FMPOBC.G.S.X.
0.013e-138At5g58740835988nuclear movement family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFC.G.S.X.
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Orthologous genes



Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.032e-656Glycine maxGmaAffx.77909.1.S1_atBG882051--9e-11At1g26730EXS family protein / ERD1/XPR1/SYG1 family proteinC.G.S.X.
0.012e+034Hordeum vulgareHS18J23u_s_atHS18J23u--3e-1At5g56600PRF3 (PROFILIN 3)C.G.S.X.
0.012e-656Oryza sativaOs02g0809800AK063181.1--5e-1At2g34140Dof-type zinc finger domain-containing proteinC.G.S.X.
0.202e-21105Populus trichocarpaPtpAffx.207872.1.S1_atpmrna15627pho1-like protein-9e-17At1g14040-C.G.S.X.
0.013e-138Triticum aestivumTaAffx.26217.1.S1_atCA690962--9e+0At1g47655Dof-type zinc finger domain-containing proteinC.G.S.X.
0.023e-136Vitis vinifera1611746_atCB344554hypothetical protein LOC100266405-1e-1At4g02080ATSAR2 (ARABIDOPSIS THALIANA SECRETION-ASSOCIATED RAS SUPER FAMILY 2)C.G.S.X.
0.031e-757Zea maysZm.11798.1.A1_atBM380830--1e-6At3g23430PHO1 (phosphate 1)C.G.S.X.
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Biological processes



Click GO ID to show a list of genes that are associated with the GO ID.

ECCGO IDProcess Name
XGO:0080113Any process that modulates the frequency, rate or extent of growth of the seed of an plant.
XGO:0080050Any process that modulates the frequency, rate or extent of seed development.
XGO:0009960The process whose specific outcome is the progression of the endosperm over time, from its formation to the mature structure. The endosperm is formed during fertilization and provides nutrients to the developing embryo.
XGO:0010468Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.
XGO:0045793Any process that increases cell size.
XGO:0010017The series of molecular signals initiated upon sensing by photoreceptor molecules of red light or far red light. Red light is electromagnetic radiation of wavelength of 580-700nm. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs.
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Metabolic pathways



Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View IDLink to Kappa-ViewPathway Name



Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
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